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by east2west 4889 days ago
samtools is among the better software in sequencing-data analysis. It is also great in defining formally the file format it uses. The same cannot be said of many other tools. For my recent work in RNA-Seq, samtools is the most robust and trustworthy tool I looked at and used, and I looked at almost every popular tool, the major exception being RSEM. If only all bioinformatics tools are more like samtools.